Sequence
atgc intronic sequence ATGC exonic sequencegtaagataagtggcaatatttctcaagtaatgttcagttcttttttggtctgattaactgtactcttcccccaccccctcttaatcatagGTTTTAAAGGTGAAAGAGGAGAGTTTGGTGCCAGCTAATCCTGATATTCTTGATGGAGTGGATGACCTCATGCAACTAAGTTATTTAAATGAGCCATCGG
Basic information
species | Glycine max |
transcript | GLYMA20G23660.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G23660.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G139583_T02 (Zea mays), 3'ss of exon 2
gtaagataagtggcaatatttctcaagtaatgttcagttcttttttggtctgattaactgtactcttcccccaccccctcttaatcatagGTTTTAAAGGTGAAAGAGGAGAGTTTGGTGCCAGCTAATCCTGATATTCTTGATGGAGTGGATGACCTCATGCAACTAAGTTATTTAAATGAGCCATCGG
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-----gtaagttgcag-atttcttt--taagagtctgttctataatcactggaagcatggtcatttgaccgcccttcccttt--tta-agGTACTGAGATTGAAAACAGAGAGCCTTCAACCTGCAAATCCTGAAATTCTTGATGGAGTGGATGACCTTATGCAGCTAAGTTATCTAAGTGAACCATCAG
upper sequence: GLYMA20G23660.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G113202_T01 (Zea mays), 3'ss of exon 2
gtaagataagtggcaatatttctcaagtaatgttcagttcttttttggtctgattaactgt-actcttcccccaccccctcttaatcatagGTTTTAAAGGTGAAAGAGGAGAGTTTGGTGCCAGCTAATCCTGATATTCTTGATGGAGTGGATGACCTCATGCAACTAAGTTATTTAAATGAGCCATCGG
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-----gtaagttgcagatttctttctaagatagtctgttctataatcactggaagcatgatcatttgacccccacccttcccttttta-agGTACTGAGATTGAAAACCGAGTGTCTACAACCTGCAAATCCTGAAATTCTTGATGGAGTGGATGATCTTATGCAGCTAAGTTATCTAAGTGAACCATCAG
upper sequence: GLYMA20G23660.1 (Glycine max), 3'ss of exon 3
lower sequence: AT3G19960.2 (Arabidopsis thaliana), 3'ss of exon 3
gtaagataagtggcaatatttctcaagtaatgttcagttcttttttggtctgattaactgtactcttcccccaccccctcttaatcatagGTTTTAAAGGTGAAAGAGGAGAGTTTGGTGCCAGCTAATCCTGATATTCTTGATGGAGTGGATGACCTCATGCAACTAAGTTATTTAAATGAGCCATCGG
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gtaag-taactttttgtatttctaaggta--gccaggttaatttttgaagtatttgatctgaaactactttca----aacttgaa-acagGTTATAAAAGTCATATCAGAGACTCTAGTACCTGCAAATCCTGATATTCTTGATGGAGTGGACGATCTTATGCAGCTTAGTTACTTAAATGAGCCATCAG
upper sequence: GLYMA20G23660.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G50360.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaagataagtggcaatatttctcaagtaatgttcagttcttttttggtctgattaactgtactcttcccccaccccctcttaatcatagGTTTTAAAGGTGAAAGAGGAGAGTTTGGTGCCAGCTAATCCTGATATTCTTGATGGAGTGGATGACCTCATGCAACTAAGTTATTTAAATGAGCCATCGG
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gtaagtgattttgttaaattccctgggtgaatgtaaactattattgtaagtgtttgatcggaaactatctcttcacttgattca--acagGTTTTAAAAGTCAAATCAGAGACTTTAGTACCTGCAAATCCTGATATTCTTGATGGAGTAGACGATCTCATGCAACTAAGTTATTTAAATGAGCCAGCAG
upper sequence: GLYMA20G23660.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv10s0071g00210.t01 (Vitis vinifera), 3'ss of exon 2
gtaagataagtg--gcaatatttctcaagtaatgttcagttcttttttggtctgattaactgtactcttcccccaccccctcttaatcatagGTTTTAAAGGTGAAAGAGGAGAGTTTGGTGCCAGCTAATCCTGATATTCTTGATGGAGTGGATGACCTCATGCAACTAAGTTATTTAAATGAGCCATCGG
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gtaagtaaactaatgcaaacttggatgattgattgtatgtcaatgaatctgttgtttaccttt--ttattttgcactggttttcaattttagGTTTTAAAGGTGAATACTGACAGCCTGTTACCTGCAAACCCCGATATACTTGACGGTGTAGATGACCTTATGCAACTTAGTTACTTAAATGAGCCATCGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agttcttttttggtctgattaactgtactcttcccccaccccctcttaatcatagGTTTTAAAGGTGAAAGAGGAGAGTTTGGTGCCAGCTAATCCTGATATTCTTGATGGAGTGGATGACCTCATGCAACTAAGTTATTTAAATGAGCCATCGG
ctgtactcttccccca CT-rich tract
ttaatcata TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagataagtggcaatatttctcaagtaatgttcagttcttttttggtctgattaactgtactcttcccccaccccctcttaatcatagGTTTTAAAGGTGAAAGAGGAGAGTTTGGTGCCAGCTAATCCTGATATTCTTGATGGAGTGGATGACCTCATGCAACTAAGTTATTTAAATGAGCCATCGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA